Variant report

Variant	rs10457036
Chromosome Location	chr6:140379420-140379421
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:140375571..140378188-chr6:140378713..140381591,2	K562	blood:
2	chr6:139692809..139695953-chr6:140377824..140381210,3	MCF-7	breast:
3	chr6:140362168..140365003-chr6:140377211..140380163,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164442	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10457699	1.00[JPT][hapmap]
rs10457701	0.93[ASN][1000 genomes]
rs10457702	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11155092	0.83[ASN][1000 genomes]
rs11155093	0.83[ASN][1000 genomes]
rs11155094	0.83[ASN][1000 genomes]
rs11155102	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11754775	0.83[ASN][1000 genomes]
rs12193363	0.83[ASN][1000 genomes]
rs12193742	0.83[ASN][1000 genomes]
rs12194624	0.83[ASN][1000 genomes]
rs12194665	0.83[ASN][1000 genomes]
rs12198042	0.83[ASN][1000 genomes]
rs12198595	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12198639	0.83[ASN][1000 genomes]
rs12198642	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs12202850	0.93[ASN][1000 genomes]
rs12204229	0.83[ASN][1000 genomes]
rs12204306	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12205335	0.93[ASN][1000 genomes]
rs12207470	0.83[ASN][1000 genomes]
rs12210493	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12212163	0.82[AMR][1000 genomes]
rs12212554	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12214000	0.83[ASN][1000 genomes]
rs12214369	1.00[CHB][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap]
rs12214414	0.83[ASN][1000 genomes]
rs12215417	0.83[ASN][1000 genomes]
rs12216315	0.83[ASN][1000 genomes]
rs169291	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs17516775	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs201284	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs201285	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.91[TSI][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2024678	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2064502	0.83[ASN][1000 genomes]
rs34059065	0.93[ASN][1000 genomes]
rs72986764	0.83[ASN][1000 genomes]
rs72986775	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9373254	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9376479	0.83[ASN][1000 genomes]
rs9484322	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs9495596	0.80[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1016532	chr6:140174639-141029988	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1019508	chr6:140317472-140434466	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1022987	chr6:140344229-140463916	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10457036	IL22RA2	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140373600-140381000	Weak transcription	HSMM	muscle
2	chr6:140373600-140384200	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:140374000-140380000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr6:140374200-140383800	Weak transcription	Fetal Brain Female	brain
5	chr6:140374800-140379800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr6:140374800-140381400	Weak transcription	NHEK	skin
7	chr6:140374800-140382400	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:140375000-140380000	Weak transcription	NHDF-Ad	bronchial
9	chr6:140375000-140380200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:140375000-140381400	Weak transcription	NH-A	brain
11	chr6:140375000-140383800	Weak transcription	Brain Germinal Matrix	brain
12	chr6:140375400-140380000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:140375400-140380400	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr6:140377400-140381200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr6:140378000-140383000	Weak transcription	Psoas Muscle	Psoas
16	chr6:140379400-140379800	Enhancers	Placenta	Placenta
17	chr6:140379400-140383600	Enhancers	Hela-S3	cervix

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